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ctk.loc
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ctk.loc
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#<dbkey> <analysis> <path> [type]
#***hg38***
#for bed2annotation.pl
hg38 gene annotation/genes/gene2symbol.hg.20180317 gene2symbol
hg38 gene annotation/genomes/hg38/annotation/refGene_knownGene.bed transcript
hg38 gene annotation/genomes/hg38/annotation/refGene_knownGene_To_gene.txt transcript2gene
hg38 rmsk annotation/genomes/hg38/annotation/rmsk.bed.gz
hg38 rmsk_RNA annotation/genomes/hg38/annotation/rmsk.RNA.bed
hg38 miRNA annotation/genomes/hg38/annotation/miRNA.bed
#note: these are non-overlapping regions after clustering, to reduce computing time
hg38 region annotation/genomes/hg38/annotation/hg38.genic.bed genic
hg38 region annotation/genomes/hg38/annotation/refGene_knownGene.upstream.10k.cluster.bed upstream_10k
hg38 region annotation/genomes/hg38/annotation/refGene_knownGene.downstream.10k.cluster.bed downstream_10k
hg38 region annotation/dbCASE/db_hg38/exons/hg38.exon.uniq.cluster.bed exon
hg38 region annotation/genomes/hg38/annotation/refGene_knownGene.5utr.cluster.bed 5utr
hg38 region annotation/genomes/hg38/annotation/refGene_knownGene.3utr.cluster.bed 3utr
hg38 region annotation/genomes/hg38/annotation/refGene_knownGene.cds.cluster.bed cds
#for tag2peak
hg38 genic annotation/genomes/hg38/annotation/refGene_knownGene.meta.6.bed
#***hg19***
#for bed2annotation.pl
hg19 gene annotation/genes/gene2symbol.hg gene2symbol
hg19 gene annotation/genomes/hg19/annotation/refGene_knownGene.bed transcript
hg19 gene annotation/genomes/hg19/annotation/refGene_knownGene_To_gene.txt transcript2gene
hg19 rmsk annotation/genomes/hg19/annotation/rmsk.bed.gz
hg19 rmsk_RNA annotation/genomes/hg19/annotation/rmsk.RNA.bed
hg19 miRNA annotation/genomes/hg19/annotation/miRNA.bed
#note: these are non-overlapping regions after clustering, to reduce computing time
hg19 region annotation/genomes/hg19/annotation/hg19.genic.bed genic
hg19 region annotation/genomes/hg19/annotation/refGene_knownGene.upstream.10k.cluster.bed upstream_10k
hg19 region annotation/genomes/hg19/annotation/refGene_knownGene.downstream.10k.cluster.bed downstream_10k
hg19 region annotation/dbCASE/db_hg19/exons/hg19.exon.uniq.cluster.bed exon
hg19 region annotation/genomes/hg19/annotation/refGene_knownGene.5utr.cluster.bed 5utr
hg19 region annotation/genomes/hg19/annotation/refGene_knownGene.3utr.cluster.bed 3utr
hg19 region annotation/genomes/hg19/annotation/refGene_knownGene.cds.cluster.bed cds
#for tag2peak
hg19 genic annotation/genomes/hg19/annotation/refGene_knownGene.meta.6.bed
#***mm10****
#for bed2annotation.pl
mm10 gene annotation/genes/gene2symbol.mm gene2symbol
mm10 gene annotation/genomes/mm10/annotation/refGene_knownGene.bed transcript
mm10 gene annotation/genomes/mm10/annotation/refGene_knownGene_To_gene.txt transcript2gene
mm10 rmsk annotation/genomes/mm10/annotation/rmsk.bed.gz
mm10 rmsk_RNA annotation/genomes/mm10/annotation/rmsk.RNA.bed
mm10 miRNA annotation/genomes/mm10/annotation/miRNA.bed
#note: these are non-overlapping regions after clustering, to reduce computing time
mm10 region annotation/genomes/mm10/annotation/mm10.genic.bed genic
mm10 region annotation/genomes/mm10/annotation/refGene_knownGene.upstream.10k.cluster.bed upstream_10k
mm10 region annotation/genomes/mm10/annotation/refGene_knownGene.downstream.10k.cluster.bed downstream_10k
mm10 region annotation/dbCASE/db_mm10/exons/mm10.exon.uniq.cluster.bed exon
mm10 region annotation/genomes/mm10/annotation/refGene_knownGene.5utr.cluster.bed 5utr
mm10 region annotation/genomes/mm10/annotation/refGene_knownGene.3utr.cluster.bed 3utr
mm10 region annotation/genomes/mm10/annotation/refGene_knownGene.cds.cluster.bed cds
#for tag2peak
mm10 genic annotation/genomes/mm10/annotation/refGene_knownGene.meta.6.bed
#***dm6***
#for bed2annotation.pl
dm6 gene annotation/genes/gene2symbol.dm gene2symbol
dm6 gene annotation/genomes/dm6/annotation/refGene.bed transcript
dm6 gene annotation/genomes/dm6/annotation/refGeneToGene.txt transcript2gene
dm6 rmsk annotation/genomes/dm6/annotation/rmsk.bed.gz
dm6 rmsk_RNA annotation/genomes/dm6/annotation/rmsk.RNA.bed
dm6 miRNA annotation/genomes/dm6/annotation/mirbase.dme.primary.bed
#note: these are non-overlapping regions after clustering, to reduce computing time
dm6 region annotation/genomes/dm6/annotation/dm6.genic.bed genic
dm6 region annotation/genomes/dm6/annotation/refGene.upstream.10k.cluster.bed upstream_10k
dm6 region annotation/genomes/dm6/annotation/refGene.downstream.10k.cluster.bed downstream_10k
dm6 region annotation/dbCASE/db_dm6/exons/dm6.exon.uniq.cluster.bed exon
dm6 region annotation/genomes/dm6/annotation/refGene.5utr.cluster.bed 5utr
dm6 region annotation/genomes/dm6/annotation/refGene.3utr.cluster.bed 3utr
dm6 region annotation/genomes/dm6/annotation/refGene.cds.cluster.bed cds
#for tag2peak
dm6 genic annotation/genomes/dm6/annotation/refGene.meta.6.bed